J4_5NDK_023

3D structure

PDB id

5NDK (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA

Experimental method

X-RAY DIFFRACTION

Resolution

2.95 Å

Loop

Sequence

GAC*GC*GG*CC

Length

9 nucleotides

Bulged bases

5NDK|1|1H|A|1494

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

J4_5NDK_023 not in the Motif Atlas

Homologous match to J4_9DFE_006

Geometric discrepancy: 0.1251

The information below is about J4_9DFE_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_75575.1

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

7

Unit IDs

5NDK|1|1H|G|1493
5NDK|1|1H|A|1494
5NDK|1|1H|C|1495
*
5NDK|1|1H|G|1516
5NDK|1|1H|C|1517
*
5NDK|1|1H|G|1574
5NDK|1|1H|G|1575
*
5NDK|1|1H|C|1596
5NDK|1|1H|C|1597

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains